Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 765 46.1 2269152 93.8% 2128464 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,786,746 Δ1 bp pseudogene (350/2253 nt) ygaQ → uncharacterized protein, putative enzyme

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,786,7460C.100.0% 272.7 / NA 64pseudogene (350/2253 nt)ygaQuncharacterized protein, putative enzyme
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (35/29);  total (35/29)

TTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTA  >  NC_000913/2786616‑2786862
                                                                                                                                  |                                                                                                                    
ttAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGa                                                                                                             >  1:154378/1‑139 (MQ=255)
                       ccTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGttt                                                                                      <  2:50547/139‑1 (MQ=255)
                            ctcCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAg                                                                                 >  1:493310/1‑139 (MQ=255)
                                      aaCTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTg                                                                       <  2:81169/139‑1 (MQ=255)
                                         ttACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTg                                                                    >  2:257826/1‑139 (MQ=255)
                                           aCCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATgg                                                                            <  1:1098240/129‑1 (MQ=255)
                                           aCCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATgg                                                                            >  2:1098240/1‑129 (MQ=255)
                                             cGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACa                                                                >  2:250143/1‑139 (MQ=255)
                                                gagTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACAttt                                                             >  1:845693/1‑139 (MQ=255)
                                                gagTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACAttt                                                             >  1:815270/1‑139 (MQ=255)
                                                    tGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         <  2:815270/139‑1 (MQ=255)
                                                      aaTAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGAt                                                                                                                >  2:1066786/1‑82 (MQ=255)
                                                      aaTAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGAt                                                                                                                <  1:1066786/82‑1 (MQ=255)
                                                                cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCt                                             >  1:345874/1‑139 (MQ=255)
                                                                cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCt                                             >  1:300226/1‑139 (MQ=255)
                                                                cacaGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCt                                             >  2:700591/1‑139 (MQ=255)
                                                                     cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                              >  1:227489/1‑85 (MQ=255)
                                                                     cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                              <  2:227489/85‑1 (MQ=255)
                                                                     cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         >  1:117669/1‑122 (MQ=255)
                                                                     cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         <  2:117669/122‑1 (MQ=255)
                                                                     cGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCAACATTATATCTGACaa                                        >  2:295100/1‑139 (MQ=255)
                                                                               caacgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                              >  1:1039912/4‑139 (MQ=255)
                                                                               cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         >  1:52024/1‑112 (MQ=255)
                                                                               cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         <  2:52024/112‑1 (MQ=255)
                                                                               cAGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCa                              >  2:179181/1‑139 (MQ=255)
                                                                                aGCGCCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                             <  2:300226/139‑1 (MQ=255)
                                                                                  cgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtata                                                <  2:1110162/118‑1 (MQ=255)
                                                                                  cgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtata                                                >  1:1110162/1‑118 (MQ=255)
                                                                                  cgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGAc                                          <  2:606944/124‑1 (MQ=255)
                                                                                  cgcCAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGAc                                          >  1:606944/1‑124 (MQ=255)
                                                                                    ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         >  1:29616/1‑107 (MQ=255)
                                                                                    ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         <  2:29616/107‑1 (MQ=255)
                                                                                    ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGa                         >  2:998942/1‑139 (MQ=255)
                                                                                    ccAGACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGa                         >  1:344009/1‑139 (MQ=255)
                                                                                       gACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         >  2:468689/1‑104 (MQ=255)
                                                                                       gACAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCAcc                                                         <  1:468689/104‑1 (MQ=255)
                                                                                         cAGGATAGGAGAAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAat                    <  1:998942/139‑1 (MQ=255)
                                                                                                 gagaAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGgtg                                                                                         <  2:531253/62‑1 (MQ=255)
                                                                                                 gagaAAGAAAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGgtg                                                                                         >  1:531253/1‑62 (MQ=255)
                                                                                                  agaaagaaAAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCat           <  1:250143/139‑1 (MQ=255)
                                                                                                    aaagaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCatat         <  2:344009/139‑1 (MQ=255)
                                                                                                    aaagaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGCGCTGAAc                                                                 >  1:339729/1‑83 (MQ=255)
                                                                                                    aaagaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGCGCTGAAc                                                                 <  2:339729/83‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                              <  1:1038642/52‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAg                                                                                              >  2:1038642/1‑52 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                            <  1:607750/54‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCg                                                                                            >  2:607750/1‑54 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                     >  1:615694/1‑93 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCcaca                                                     <  2:615694/93‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtata                                                <  1:44405/98‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtata                                                >  2:44405/1‑98 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAat                    >  2:1096342/1‑126 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAat                    <  1:1096342/126‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGc       <  1:700591/139‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTCATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                                 <  1:759173/97‑1 (MQ=255)
                                                                                                      agaaaAACATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGAGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGc       >  1:765000/1‑139 (MQ=255)
                                                                                                      agaaaAACATAAGTTAATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATtat                                                 >  2:759173/1‑97 (MQ=255)
                                                                                                           aaCATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTa                                                                               >  2:213239/1‑62 (MQ=255)
                                                                                                           aaCATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTa                                                                               <  1:213239/62‑1 (MQ=255)
                                                                                                           aaCATAAGTTTATCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTa  <  2:765000/139‑1 (MQ=255)
                                                                                                                       tCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCat           <  1:252012/118‑1 (MQ=255)
                                                                                                                       tCAACGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCat           >  2:252012/1‑118 (MQ=255)
                                                                                                                           cGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                             >  2:471998/1‑96 (MQ=255)
                                                                                                                           cGAGATA‑AATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCaa                             <  1:471998/96‑1 (MQ=255)
                                                                                                                                  |                                                                                                                    
TTAAAAAACGATTATAAAATTTCCCTTTCTCCAGATACAACTTACCGAGAGTTGAATAAAGCAGCACAGCGTAGCATTACAGCGCCAGACAGGATAGGAGAAAGAAAAACATAGGTTTATCAACGAGATACAATGATTGAAAGAGGTGATAACAGCGGTGTTTATCAGTATGGTCGTGCTGAACATTTCACCCACATTATATCTGACAAACCTTCCCCAAAAGATAAATATGTTGCATATGCTATTA  >  NC_000913/2786616‑2786862

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A